claude-scientific-skills

Skills (150)

• hypothesis-generation

  MIT265 lines1811 words1 blocks

  Formulate evidence-bounded scientific questions, candidate hypotheses, rival explanations, causal or associational claims, discriminating predictions,...

  bash
• etetoolkit

  GPL-3.0-or-later333 lines1277 words12 blocks

  Analyze, manipulate, compare, annotate, and visualize phylogenetic or other hierarchical trees with ETE 4. Use for Newick/Nexus tree I/O, topology edi...

  bashpython
• pptx

  Proprietary. LICENSE.txt has complete terms234 lines1418 words6 blocks

  "Use this skill any time a .pptx file is involved in any way — as input, output, or both. This includes: creating slide decks, pitch decks, or present...

  bash
• scientific-visualization

  MIT292 lines1575 words10 blocks

  Create and audit truthful, accessible, publication-ready scientific figures with Matplotlib, Seaborn, or Plotly. Use for figure design, multi-panel la...

  bashpython
• pyzotero

  MIT License125 lines679 words7 blocks

  Interact with Zotero reference management libraries using the pyzotero Python client. Retrieve, create, update, and delete items, collections, tags, a...

  bashpython
• scientific-writing

  MIT357 lines1608 words8 blocks

  Draft, revise, and audit scientific manuscripts or reports with explicit evidence provenance, reporting-guideline coverage, authorship accountability,...

  bashtext
• lamindb

  Apache-2.0 license407 lines1915 words4 blocks

  Use when working with LaminDB, the open-source lineage-native lakehouse for biological datasets and models. Covers setup, artifact registration, query...

  python
• statistical-analysis

  MIT license445 lines2704 words14 blocks

  Guided statistical analysis for research data - test selection, assumption checking, effect sizes, power analysis, Bayesian alternatives, and APA-form...

  bashpython
• parallel-web

  MIT121 lines877 words7 blocks

  "Use Parallel CLI for web search, URL extraction, deep research, structured data enrichment, entity discovery, and recurring web monitoring. Best for ...

  bash
• xlsx

  Proprietary. LICENSE.txt has complete terms328 lines1668 words12 blocks

  "Create, edit, analyze, or convert Excel spreadsheets (.xlsx, .xlsm) where the workbook file is the primary deliverable. Use for formulas, formatting,...

  bashjsonpython
• geopandas

  MIT251 lines1460 words3 blocks

  Guidance and local audit tools for Python workflows that directly use GeoPandas GeoSeries, GeoDataFrame, spatial operations, or vector-data I/O.

  bashpython
• arboreto

  BSD-3-Clause license266 lines919 words16 blocks

  Infer gene regulatory networks (GRNs) from gene expression data using scalable algorithms (GRNBoost2, GENIE3). Use when analyzing transcriptomics data...

  bashpython
• exa-search

  MIT94 lines715 words4 blocks

  "Web toolkit powered by Exa, tuned for scientific and technical content. Use this skill when the user needs to search the web or fetch/extract URL con...

  bash
• torchdrug

  Apache-2.0 license242 lines1003 words4 blocks

  Build and troubleshoot TorchDrug 0.2.1 workflows for molecular graphs, property prediction, self-supervised pretraining, molecule generation, retrosyn...

  bashpython
• bgpt-paper-search

  MIT72 lines400 words3 blocks

  Search scientific papers and retrieve structured experimental data extracted from full-text studies via the BGPT MCP server. Returns 25+ fields per pa...

  bashjson
• deeptools

  BSD license537 lines2377 words15 blocks

  NGS analysis toolkit. BAM to bigWig conversion, QC (correlation, PCA, fingerprints), heatmaps/profiles (TSS, peaks), for ChIP-seq, RNA-seq, ATAC-seq v...

  bash
• bioservices

  GPLv3 license386 lines1416 words15 blocks

  Unified Python interface to 40+ bioinformatics services. Use when querying multiple databases (UniProt, KEGG, ChEMBL, Reactome) in a single workflow w...

  bashpython
• nextflow

  Apache-2.0194 lines1576 words5 blocks

  Build, run, and debug Nextflow data pipelines and nf-core workflows end to end. Use whenever the user mentions Nextflow, nf-core, .nf files, nextflow....

  bashnextflow
• hugging-science

  131 lines1419 words3 blocks

  Use when the user is doing AI/ML work in a scientific domain such as biology, chemistry, physics, astronomy, climate, genomics, materials, medicine, e...

  bashpython
• scanpy

  BSD-3-Clause512 lines2435 words25 blocks

  Standard single-cell RNA-seq analysis pipeline. Use for QC, normalization, dimensionality reduction (PCA/UMAP/t-SNE), clustering, differential express...

  bashpython